saly jackson wrote:
Hi all
I want to know about the ability of GROMACS to simulate sulfate in(SO4
(2-)),
Do we can have the ion in our simulation using GROMACS?
That depends on the force field you want to use. There are parameters for
sulfate in all of the Gromos force fields, but I can't comment on their
suitability. You should also not just pick one of these because it happens to
already exist in order to make your life easy.
Check the literature for suitable parameters, otherwise have a look at
http://www.gromacs.org/Documentation/How-tos/Parameterization and be prepared
for a lot of work.
-Justin
Thanks alot
Saly
--
========================================
Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
MILES-IGERT Trainee
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin
========================================
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